NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0307512_10001769

Scaffold Ga0307512_10001769


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10001769 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29439
Total Scaffold Genes41 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (60.98%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → Pezizomycetes → Pezizales(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F008227Metagenome336Y
F019765Metagenome227Y
F078047Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000176915F004778N/AMTRELQSTLEDPGIELPALRNHVPCTAHVIQLAFGVFKSSLSVNGCTKSWKAHARDQQFGENESLYIGKSQRLRKEGNARINNVSAMRPGLAKIIEKVRISEYFE
Ga0307512_1000176931F078047AGGAVGRYFSGTLEGGWTGNNLEFFGEVLGLFLVFCLFYYYIIHIHA
Ga0307512_1000176938F019765GAGMLQVMDNIEASCIFYVKAGTFTHFEQSNISLLNVNKFGIVKLTVQPDMIVSVSFM
Ga0307512_1000176939F008227N/AMDTLPPQPGESGSKSSRLAGATSGMPIIGTKGERRHQLVHRDAANAATKHITQDTDLKIIRKTGSSQNTKQLAVGCEYIHIEVNGRRLTV
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